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Author SHA1 Message Date
Piotr Faba
cb7a6f756a reduce complexity 2020-07-07 13:48:28 +02:00
Piotr Faba
4181184f58 fix spaces 2020-07-02 22:00:37 +02:00
Piotr Faba
4828e78708 fix error introduced earlier 2020-07-02 21:57:44 +02:00
Piotr Faba
cb26bef3f3 resolve #162 bug 2020-06-18 20:30:05 +02:00
Piotr Faba
f139750bf4 print the error message before throwing Exception 2020-05-27 19:14:43 +02:00
Piotr Faba
3c695ba71c test error display 2020-05-27 18:00:47 +02:00
Piotr Faba
18d8edb046 add description and profile 2020-05-27 17:41:19 +02:00
Piotr Faba
f5e2a9f9f3 try without dummy.config: use relative path 2020-05-27 16:55:37 +02:00
Piotr Faba
3ad0003979 test without dummy config 2020-05-27 16:46:08 +02:00
Piotr Faba
1a9db371c3 remove echos 2020-05-27 16:43:32 +02:00
Piotr Faba
ac47d020cb debug: continue 2020-05-27 16:38:11 +02:00
Piotr Faba
ff5fdd097b debug 2020-05-27 16:35:55 +02:00
Piotr Faba
ab3070582e Fix paths to dummy.config 2020-05-27 16:32:19 +02:00
Piotr Faba
66f191a1cf declate NXF_GLOBAL_CONFIG in ci 2020-05-27 16:30:00 +02:00
Piotr Faba
2685275952 switch include off 2020-05-27 16:24:47 +02:00
Piotr Faba
c31b03108c retry without Exception 2020-05-27 16:22:56 +02:00
Piotr Faba
1354ae4063 add bi config 2020-05-27 16:19:15 +02:00
Harshil Patel
5981e5ec27
Merge pull request #153 from FriederikeHanssen/cfc_scratch 
Add scratch = true to avoid writing of intermediate file to /tmp
 2020-05-22 15:48:00 +01:00
Phil Ewels
a7afd6a4e5
Merge pull request #152 from nf-core/jfy133-patch-1 
SHH doc typo fixes
 2020-05-07 12:03:45 +02:00
James A. Fellows Yates
2e3b577fb3
Typo fixes 
I'll never forgive our directory for that name...
 2020-05-07 11:50:11 +02:00
James A. Fellows Yates
38e9e54932
Merge pull request #151 from jfy133/master 
Add additional custom nf-core/eager params for SHH profile
 2020-05-07 09:25:02 +02:00
James A. Fellows Yates
0a312cd2c9
Update shh.md 2020-05-07 09:17:56 +02:00
James A. Fellows Yates
cf6e697f0b
Further update aln based on modifications of EAGER defaults 2020-05-07 09:16:08 +02:00
James A. Fellows Yates
4d7e9ccf2f
Apply suggestions from review 2020-05-06 08:35:23 +02:00
James A. Fellows Yates
4804052b23
Update SHH nf-core/eager pipeline docs 2020-05-04 21:04:17 +02:00
James A. Fellows Yates
d42d7f4146
Sets the bwa aln parameter to 0.01 which is more commonly used at SHH 2020-05-04 21:02:16 +02:00
FriederikeHanssen
d6813d9c39 Add scratch = true to avoid writing of intermediate file to /tmp 2020-05-04 17:09:43 +02:00
Maxime Garcia
fe77f02551
Merge pull request #150 from MaxUlysse/Munin 
update rnafusion munin specific config
 2020-04-28 17:46:17 +02:00
MaxUlysse
e6f4d58fa6 update rnafusion munin specific config 2020-04-28 17:06:04 +02:00
Harshil Patel
2300d5a962
Update genomes.config 2020-04-09 18:22:41 +01:00
Harshil Patel
a17cac1ceb
Merge pull request #149 from MaxUlysse/viralreconupdate 
Viralreconupdate
 2020-04-09 18:22:06 +01:00
Harshil Patel
53125368be
Merge branch 'master' into viralreconupdate 2020-04-09 18:21:05 +01:00
Harshil Patel
6834f020cb
Update viralrecon.config 2020-04-09 17:49:15 +01:00
MaxUlysse
5678494e45 fix typo 2020-04-09 17:13:19 +02:00
MaxUlysse
50a44d037b better docs and organisation of giles 2020-04-09 17:02:36 +02:00
Harshil Patel
6adc7342e9
Merge pull request #148 from MaxUlysse/viralrecon 
add viralrecon specific config
 2020-04-09 13:34:23 +01:00
Harshil Patel
4fd9b73cec
Update pipeline/viralrecon.config 2020-04-09 13:31:39 +01:00
Harshil Patel
290d0a2180
Update pipeline/viralrecon.config 2020-04-09 13:31:20 +01:00
MaxUlysse
19316ce852 add viralrecon specific config 2020-04-09 13:40:35 +02:00
Maxime Garcia
de5b7717ff
Merge pull request #147 from nf-core/MaxUlysse-patch-1 
Update uppmax.config
 2020-04-09 12:08:41 +02:00
Maxime Garcia
34dc18faf6
Update uppmax.config 2020-04-09 11:35:37 +02:00
Maxime Garcia
d1ff87a416
Merge pull request #145 from bioatlas/master 
Adding UPPMAX specific config for ampliseq
 2020-03-31 15:46:21 +02:00
Daniel Lundin
e77cd38092 Adding ampliseq/UPPMAX doc to README.md 2020-03-31 15:42:25 +02:00
Daniel Lundin
e0f9374272
Update pipeline/ampliseq.config 
Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
 2020-03-31 15:33:19 +02:00
Daniel Lundin
5a557ed7d5
Update pipeline/ampliseq.config 
Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
 2020-03-31 15:33:12 +02:00
Daniel Lundin
79ef94de47
Update pipeline/ampliseq.config 
Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
 2020-03-31 15:33:04 +02:00
Daniel Lundin
c8de9be701 Adding UPPMAX specific config for ampliseq 2020-03-31 15:17:24 +02:00
Phil Ewels
554ab6673c
Merge pull request #144 from MaxUlysse/UPPMAX 
[UPPMAX] add s.* pattern for bianca cluster
 2020-03-30 17:01:38 +02:00
MaxUlysse
db2dd4458b Merge remote-tracking branch 'upstream/master' into UPPMAX 2020-03-30 16:41:08 +02:00
MaxUlysse
8b570507cd update s 2020-03-30 16:40:11 +02:00